NdoA - Revision history

Jstuelk: /* References */

2014-09-23T09:00:37Z

‎References

134.76.38.147 at 13:02, 2 April 2014

2014-04-02T13:02:15Z

Jstuelk at 16:35, 6 February 2014

2014-02-06T16:35:39Z

134.76.70.252 at 14:14, 18 November 2013

2013-11-18T14:14:09Z

Jstuelk at 09:22, 21 October 2013

2013-10-21T09:22:02Z

Jstuelk: /* Database entries */

2013-10-16T17:59:10Z

‎Database entries

Jstuelk: /* References */

2013-10-16T17:58:45Z

‎References

134.76.70.252 at 12:36, 16 May 2013

2013-05-16T12:36:15Z

134.76.70.252 at 09:31, 14 May 2013

2013-05-14T09:31:45Z

134.76.70.252 at 12:11, 13 May 2013

2013-05-13T12:11:32Z

← Older revision		Revision as of 09:00, 23 September 2014
Line 1:		Line 1:
−	* '''Description:''' [[RNase]] EndoA, MazF family toxin, UACAU-specific mRNA interferase <br/><br/>	+	{{#bank: NdoA}}
−	{~~\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''ndoA''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| ''ydcE, mazF''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| mRNA interferase~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| unknown~~
−	\|-
−	~~\|colspan="2" style="background:~~#~~FAF8CC;" align="center"\| '''Gene expression levels in [http://subtiwiki.uni-goettingen.de/apps/expression/ ''Subti''Express]''': [http~~:~~//subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU04660 ndoA]~~
−	\|-
−	\|colspan="2" style="background:#FAF8CC;" align="center"\| '''Interactions involving this protein in [http://subtiwiki.uni-goettingen.de/interact/ ''Subt''Interact]''': [http://subtiwiki.uni-goettingen.de/interact/index.php?protein=NdoA ~~NdoA]~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 12 kDa, 4.892~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 348 bp, 116 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[ndoAI]]'', ''[[rsbR]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU04660 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU04660 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU04660 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:ydcE_context.gif]]~~
−	~~<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div>~~
−	\|-
−	~~\|colspan="2" \|'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ndoA_518943_519293_1 Expression at a glance]'''   {{PubMed\|22383849~~}~~}<br/>[[Image:ndoA_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU04660]]~~
−	\|-
−	\|}

−	~~__TOC__~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/>~~
−
−	~~= [[Categories]] containing this gene/protein =~~
−	~~{{SubtiWiki category\|[[Rnases]]}},~~
−	~~{{SubtiWiki category\|[[toxins, antitoxins and immunity against toxins]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU04660
−
−	~~===Phenotypes of a mutant ===~~
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU04660&redirect=T BSU04660]
−
−	* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ydcE.html]
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12092]
−
−	~~=== Additional information===~~
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:''' specifically cleaves a five-base sequence, UACAU {{PubMed\|21763692}}
−
−	* '''Protein family:''' pemK family (according to Swiss-Prot)
−
−	* '''Paralogous protein(s):'''
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−
−	* '''[[Domains]]:'''
−
−	* '''Modification:'''
−
−	* '''[[Cofactors]]:'''
−
−	* '''Effectors of protein activity:''' the activity is inhibited by the interaction with [[NdoAI]] {{PubMed\|17416361}}
−
−	* '''[[SubtInteract\|Interactions]]:'''
−	** [[NdoA]](2)-[[NdoAI]](2)-[[NdoA]](2) {{PubMed\|24120662,17416361}}
−	** the active protein forms dimers {{PubMed\|24120662}}
−
−	* '''[[Localization]]:'''
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU04660&redirect=T BSU04660]
−
−	* '''Structure:'''
−	** [http://www.rcsb.org/pdb/explore.do?structureId=1NE8 1NE8] {{PubMed\|14517982}}
−	** [http://www.rcsb.org/pdb/explore.do?structureId=4MDX 4MDX] (NdoA-RNA) {{PubMed\|24120662}}
−	** [http://www.rcsb.org/pdb/explore.do?structureId=4ME7 4ME7] ([[NdoA]]-[[NdoAI]] complex) {{PubMed\|24120662}}
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/P96622 P96622]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU04660]
−
−	* '''E.C. number:'''
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:''' ''[[ndoAI]]-[[ndoA]]'' {{PubMed\|15882409}}
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ndoA_518943_519293_1 ndoA] {{PubMed\|22383849}}
−
−	* '''[[Sigma factor]]:'''
−
−	* '''Regulation:'''
−
−	* '''Regulatory mechanism:'''
−
−	* '''Additional information:'''
−	** An [[ncRNA\|antisense RNA]] is predicted for ''[[ndoA]]'' {{PubMed\|20525796}}
−
−	~~=Biological materials =~~
−
−	* '''Mutant:'''
−
−	* '''Expression vector:'''
−
−	* '''lacZ fusion:'''
−
−	* '''GFP fusion:'''
−
−	* '''two-hybrid system:'''
−
−	* '''Antibody:'''
−
−	~~=Labs working on this gene/protein=~~
−
−	~~=Your additional remarks=~~
−
−	~~=References=~~
−
−	~~<pubmed>15882409,17416361, 20525796 21763692 21897862 23378533 14517982 24120662 24489751 </pubmed>~~
−
−	~~[[Category:Protein-coding genes]]~~

@@ Line 54: / Line 54: @@
 === Database entries ===
 * '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ydcE.html]
@@ Line 90: / Line 91: @@
 === Database entries ===
 * '''Structure:'''

@@ Line 75: / Line 75: @@
 * '''Kinetic information:'''
-* '''Domains:'''
+* '''[[Domains]]:'''
 * '''Modification:'''
-* '''Cofactor(s):'''
+* '''[[Cofactors]]:'''
 * '''Effectors of protein activity:''' the activity is inhibited by the interaction with [[NdoAI]] {{PubMed|17416361}}
@@ Line 139: / Line 139: @@
 =References=
-<pubmed>15882409,17416361, 20525796 21763692 21897862 23378533 14517982 24120662</pubmed>
+<pubmed>15882409,17416361, 20525796 21763692 21897862 23378533 14517982 24120662 24489751 </pubmed>
 [[Category:Protein-coding genes]]

@@ Line 15: / Line 15: @@
 |colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://subtiwiki.uni-goettingen.de/apps/expression/ ''Subti''Express]''': [http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU04660 ndoA]
 |-
-|colspan="2" style="background:#FAF8CC;" align="center"| '''Interactions involving this protein in [http://cellpublisher.gobics.de/subtinteract/startpage/start/ ''Subt''Interact]''': [http://cellpublisher.gobics.de/subtinteract/interactionList/2/NdoA NdoA]
+|colspan="2" style="background:#FAF8CC;" align="center"| '''Interactions involving this protein in [http://subtiwiki.uni-goettingen.de/interact/ ''Subt''Interact]''': [http://subtiwiki.uni-goettingen.de/interact/index.php?protein=NdoA NdoA]
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 12 kDa, 4.892

@@ Line 84: / Line 84: @@
 * '''[[SubtInteract|Interactions]]:'''
-** [[NdoAI]]-[[NdoA]] {{PubMed|17416361}}
+** [[NdoA]](2)-[[NdoAI]](2)-[[NdoA]](2) {{PubMed|24120662,17416361}}
 * '''[[Localization]]:'''
@@ Line 90: / Line 91: @@
 === Database entries ===
-* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1NE8 1NE8] {{PubMed|14517982}}
+* '''Structure:'''
 * '''UniProt:''' [http://www.uniprot.org/uniprot/P96622 P96622]
@@ Line 135: / Line 139: @@
 =References=
-<pubmed>15882409,17416361, 20525796 21763692 21897862 23378533 14517982 </pubmed>
+<pubmed>15882409,17416361, 20525796 21763692 21897862 23378533 14517982 24120662</pubmed>
 [[Category:Protein-coding genes]]

@@ Line 28: / Line 28: @@
   <div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div>
 |-
-|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ndoA_518943_519293_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:ndoA_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ndoA_518943_519293_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:ndoA_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU04660]]
 |-
 |}

@@ Line 23: / Line 23: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ndoAI]]'', ''[[rsbR]]''
 |-
-|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU04660 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU04660 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU04660 Advanced_DNA]
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU04660 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU04660 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU04660 DNA_with_flanks]
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:ydcE_context.gif]]